Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold156
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2697547
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 10 of 14
Found at i:1915033 original size:18 final size:19
Alignment explanation
Indices: 1914996--1915030 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1914986 AACTTTTAAT
1914996 TTTATTTTAATTTAATTTA
1 TTTATTTTAATTTAATTTA
1915015 TTTA-TTTAA-TTAATTT
1 TTTATTTTAATTTAATTT
1915031 TATCTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTTTAATTTAATTTA
Found at i:1925986 original size:13 final size:13
Alignment explanation
Indices: 1925968--1926000 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1925958 AATTGATAAA
1925968 AATTTAAAAATTT
1 AATTTAAAAATTT
1925981 AATTT-AAAATTT
1 AATTTAAAAATTT
*
1925993 ATTTTAAA
1 AATTTAAA
1926001 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTTAAAAATTT
Found at i:1926117 original size:16 final size:16
Alignment explanation
Indices: 1926100--1926157 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
1926090 CATATTTTTA
1926100 TTAATTATTTATTATAT
1 TTAATT-TTTATTATAT
1926117 TTAATTTTTATTTAATAT
1 TTAATTTTTA-TT-ATAT
* *
1926135 TTAATATTTTAATATAA
1 TTAAT-TTTTATTATAT
1926152 TTAATT
1 TTAATT
1926158 AGTTCAACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.14
17 16 0.44
18 10 0.28
19 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTTTATTATAT
Found at i:1926123 original size:27 final size:26
Alignment explanation
Indices: 1926093--1926147 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
1926083 GTTAATACAT
*
1926093 ATTTTTA-TTAATTATTTATTATATTTA
1 ATTTTTATTTAA-TATTTAATAT-TTTA
1926120 ATTTTTATTTAATATTTAATATTTTA
1 ATTTTTATTTAATATTTAATATTTTA
1926146 AT
1 AT
1926148 ATAATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 16 0.62
28 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTTATTTAATATTTAATATTTTA
Found at i:1926430 original size:23 final size:21
Alignment explanation
Indices: 1926403--1926446 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
1926393 ATATTTATAT
1926403 ATTTTATAATTAAATTTAAATAA
1 ATTTTATAATT-AA-TTAAATAA
* *
1926426 ATTTTTTTATTAATTAAATAA
1 ATTTTATAATTAATTAAATAA
1926447 TGATTGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTATAATTAATTAAATAA
Found at i:1926898 original size:2 final size:2
Alignment explanation
Indices: 1926883--1926919 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1926873 TTTTGTTGCC
1926883 AT AT -T AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1926920 CCCTTTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1927131 original size:28 final size:27
Alignment explanation
Indices: 1927098--1927170 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
1927088 ATATAATGTA
1927098 AAAAAATAATTAAAATATGACATGACAT
1 AAAAAATAATTAAAATATGACATGA-AT
* *
1927126 AAAAAATAA-TACAAACATGATATGAAT
1 AAAAAATAATTA-AAATATGACATGAAT
*
1927153 ATATAAATACATTAAAAT
1 A-AAAAATA-ATTAAAAT
1927171 TTATATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 5 0.14
28 26 0.70
29 4 0.11
30 2 0.05
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAAAATAATTAAAATATGACATGAAT
Found at i:1927226 original size:27 final size:27
Alignment explanation
Indices: 1927145--1927274 Score: 75
Period size: 32 Copynumber: 4.5 Consensus size: 27
1927135 TACAAACATG
*
1927145 ATATGAATATATAAATACATTAAAATTT
1 ATATAAATATAT-AATACATTAAAATTT
* *
1927173 ATATAATATAAATTATTAACAAATTAAAATTT
1 ATATAA-AT--A-TA-TAATACATTAAAATTT
* *
1927205 ATATAAATATATAATACTTTAATCATGATT
1 ATATAAATATATAATACATTAA-AAT--TT
* * * *
1927235 ATA-ACATATAATAATGCATTAACA-TA
1 ATATAAATAT-ATAATACATTAAAATTT
1927261 ATATAAATATATAA
1 ATATAAATATATAA
1927275 ATTATTAGAT
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
26 8 0.10
27 13 0.16
28 9 0.11
29 10 0.12
30 15 0.19
31 3 0.04
32 21 0.26
33 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (27 bp):
ATATAAATATATAATACATTAAAATTT
Found at i:1931856 original size:52 final size:52
Alignment explanation
Indices: 1931812--1931940 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1931802 CACTGATCTT
1931812 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* * *
1931864 TGTATCGATACATACAGGTAAATTTGCCCAGATGTATCCATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1931916 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1931941 TCATATTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1936059 original size:19 final size:18
Alignment explanation
Indices: 1936032--1936068 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1936022 TAAAATATAT
*
1936032 TTTTAAATTTTAATTAAA
1 TTTTAAATTTTAAATAAA
1936050 TTTTATAATTTTAAATAAA
1 TTTTA-AATTTTAAATAAA
1936069 ATATATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAAATTTTAAATAAA
Found at i:1936075 original size:19 final size:19
Alignment explanation
Indices: 1936037--1936077 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1936027 TATATTTTTA
* * *
1936037 AATTTTAATTAAATTTTAT
1 AATTTTAAATAAAATATAT
1936056 AATTTTAAATAAAATATAT
1 AATTTTAAATAAAATATAT
1936075 AAT
1 AAT
1936078 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTTTAAATAAAATATAT
Found at i:1936097 original size:21 final size:21
Alignment explanation
Indices: 1936071--1936144 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
1936061 TAAATAAAAT
1936071 ATATAATAAAAAATAATTAAA
1 ATATAATAAAAAATAATTAAA
* *
1936092 ATATAATAATAATATAA-TATA
1 ATATAATAA-AAAATAATTAAA
1936113 ATAT--TAAAAAAT--TT-AA
1 ATATAATAAAAAATAATTAAA
1936129 ATATAATATAAAAATA
1 ATATAATA-AAAAATA
1936145 TTCTTATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
16 5 0.12
17 1 0.02
18 6 0.14
19 9 0.21
21 16 0.37
22 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
ATATAATAAAAAATAATTAAA
Found at i:1936113 original size:37 final size:36
Alignment explanation
Indices: 1936063--1936145 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
1936053 TATAATTTTA
1936063 AATAAAATATATAATA-AAAAATAATTAAAATATAAT
1 AATAAAATATATAATATAAAAA-AATTAAAATATAAT
* * *
1936099 AATAATATAATATAATATTAAAAAATTTAAATATAAT
1 AATAAAAT-ATATAATATAAAAAAATTAAAATATAAT
1936136 -ATAAAA-ATAT
1 AATAAAATATAT
1936146 TCTTATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
34 4 0.10
36 12 0.29
37 21 0.51
38 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (36 bp):
AATAAAATATATAATATAAAAAAATTAAAATATAAT
Found at i:1936116 original size:5 final size:5
Alignment explanation
Indices: 1936071--1936139 Score: 50
Period size: 5 Copynumber: 13.2 Consensus size: 5
1936061 TAAATAAAAT
* * *
1936071 ATATA ATAAA AAATA ATTAAA ATATA ATAATA ATATA ATATA ATATTA
1 ATATA ATATA ATATA A-TATA ATATA AT-ATA ATATA ATATA ATA-TA
* *
1936119 A-AAA ATTTAA ATATA ATATA A
1 ATATA ATAT-A ATATA ATATA A
1936140 AAATATTCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
4 2 0.04
5 32 0.65
6 15 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:1936144 original size:29 final size:26
Alignment explanation
Indices: 1936071--1936146 Score: 73
Period size: 31 Copynumber: 2.7 Consensus size: 26
1936061 TAAATAAAAT
1936071 ATATAATA-AAAAATAATTAAAATATA
1 ATATAATATAAAAAT-ATTAAAATATA
*
1936097 ATAATAATATAATATAATATTAAAAAATTTAA
1 AT-ATAATATAA-A-AATATT--AAAATAT-A
1936129 ATATAATATAAAAATATT
1 ATATAATATAAAAATATT
1936147 CTTATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
26 2 0.05
27 6 0.14
28 2 0.05
29 10 0.24
30 4 0.10
31 15 0.36
32 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
ATATAATATAAAAATATTAAAATATA
Found at i:1936145 original size:39 final size:38
Alignment explanation
Indices: 1936062--1936141 Score: 92
Period size: 40 Copynumber: 2.1 Consensus size: 38
1936052 TTATAATTTT
*
1936062 AAATAAAATATATAATAAAAAATAATTAAAATATAATAA
1 AAATATAATATATAATAAAAAAT-ATTAAAATATAATAA
* *
1936101 TAATATAATATAATATTAAAAAAT-TT-AAATATAATATA
1 AAATATAATAT-ATAATAAAAAATATTAAAATATAATA-A
1936139 AAA
1 AAA
1936142 ATATTCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
37 10 0.29
38 5 0.14
39 9 0.26
40 11 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (38 bp):
AAATATAATATATAATAAAAAATATTAAAATATAATAA
Found at i:1936227 original size:29 final size:31
Alignment explanation
Indices: 1936195--1936274 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 31
1936185 TCGAATATTA
*
1936195 TATAAAAATATATAATATT-TTA-AAT-TAAT
1 TATAAAAATA-ATAATATTAATATAATATAAT
1936224 TAT-AAAA-AATAATATTAATATAATATAAT
1 TATAAAAATAATAATATTAATATAATATAAT
*
1936253 TATATAAATAATAATAATTAAT
1 TATAAAAATAATAAT-ATTAAT
1936275 TTGTTCTCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
26 8 0.19
27 3 0.07
28 7 0.16
29 10 0.23
30 3 0.07
31 6 0.14
32 6 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TATAAAAATAATAATATTAATATAATATAAT
Found at i:1936266 original size:31 final size:28
Alignment explanation
Indices: 1936199--1936274 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 28
1936189 ATATTATATA
*
1936199 AAAATATATAATATT-TTAAATTAATTAT
1 AAAATA-ATAATATTAATAAATTAATTAT
1936227 AAAA-AATAATATTAATATAATATAATTAT
1 AAAATAATAATATTAATA-AAT-TAATTAT
1936256 ATAAATAATAATAATTAAT
1 A-AAATAATAAT-ATTAAT
1936275 TTGTTCTCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 8 0.20
27 3 0.07
28 7 0.17
29 8 0.20
30 3 0.07
31 6 0.15
32 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAATAATAATATTAATAAATTAATTAT
Found at i:1936965 original size:42 final size:42
Alignment explanation
Indices: 1936899--1937011 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 42
1936889 TATCATTTAC
1936899 ATAAT-AAAATTTTATT--TTTATTTAAATTTAATTATAAATA
1 ATAATAAAAATTTT-TTAATTTATTTAAATTTAATTATAAATA
* * * *
1936939 TTAATAAAAATATTTTTTATTT-TTT-AATGTTATTTTTAAATA
1 ATAATAAAAAT-TTTTTAATTTATTTAAAT-TTAATTATAAATA
**
1936981 ATAATATGAATTTTTTAATTTATTTAAATTT
1 ATAATAAAAATTTTTTAATTTATTTAAATTT
1937012 TAATAAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
40 4 0.07
41 19 0.32
42 30 0.51
43 6 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (42 bp):
ATAATAAAAATTTTTTAATTTATTTAAATTTAATTATAAATA
Found at i:1939577 original size:2 final size:2
Alignment explanation
Indices: 1939570--1939598 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1939560 TCCTTTTCCT
1939570 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1939599 TTTCATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1940355 original size:2 final size:2
Alignment explanation
Indices: 1940348--1940378 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1940338 GTTTGTGCGC
1940348 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1940379 GGTATTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:1947004 original size:27 final size:25
Alignment explanation
Indices: 1946943--1947004 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
1946933 ATATAAATAT
1946943 ATTTAATA-TT-TTAAAAAATTATA
1 ATTTAATATTTATTAAAAAATTATA
* *
1946966 CTTT-ATATTTTATTTAAAAATCTATAA
1 ATTTAATA-TTTATTAAAAAAT-TAT-A
1946993 ATTTAATATTTA
1 ATTTAATATTTA
1947005 AACGAGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
22 3 0.10
23 3 0.10
24 2 0.07
25 8 0.27
26 3 0.10
27 8 0.27
28 3 0.10
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTAATATTTATTAAAAAATTATA
Found at i:1949961 original size:3 final size:3
Alignment explanation
Indices: 1949953--1949993 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1949943 GATTCTTCCT
1949953 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1949994 TACATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1952300 original size:20 final size:21
Alignment explanation
Indices: 1952261--1952300 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1952251 ATTACTGTCA
*
1952261 GCAGCAAGACTCTTTCTGGCT
1 GCAGCAAGACTCTGTCTGGCT
1952282 GCAGCAAGACT-TGTCTGGC
1 GCAGCAAGACTCTGTCTGGC
1952301 AATAAATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.25
Consensus pattern (21 bp):
GCAGCAAGACTCTGTCTGGCT
Found at i:1957622 original size:2 final size:2
Alignment explanation
Indices: 1957615--1957651 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1957605 GAATCCAGTT
1957615 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1957652 AAAAAAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1960148 original size:2 final size:2
Alignment explanation
Indices: 1960141--1960174 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1960131 TAAATTTTGT
1960141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1960175 AGTAAATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1965098 original size:5 final size:5
Alignment explanation
Indices: 1965088--1965129 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
1965078 ACGGTAAGAG
*
1965088 ATAAT ATAAT ATAAT ATAAT ATTAAA ATAAT ATAAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT AT-AAT ATAAT
1965130 TTAAATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 24 0.73
6 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:1965135 original size:11 final size:11
Alignment explanation
Indices: 1965090--1965137 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
1965080 GGTAAGAGAT
1965090 AATATAATAT-
1 AATATAATATA
1965100 AATATAATATTA
1 AATATAATA-TA
1965112 AA-ATAATATA
1 AATATAATATA
*
1965122 AATATAATTTA
1 AATATAATATA
1965133 AATAT
1 AATAT
1965138 TTAATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
10 13 0.38
11 19 0.56
12 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATAATATA
Found at i:1965166 original size:16 final size:17
Alignment explanation
Indices: 1965131--1965168 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
1965121 AAATATAATT
1965131 TAAATATTTAATTATAA
1 TAAATATTTAATTATAA
1965148 TAAA-ATTTAATTGAT-A
1 TAAATATTTAATT-ATAA
1965164 TAAAT
1 TAAAT
1965169 TATTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATATTTAATTATAA
Found at i:1966300 original size:15 final size:15
Alignment explanation
Indices: 1966265--1966306 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1966255 TATTAATTTT
*
1966265 AAATATAATATTTAAT
1 AAAT-TAATATTTAAA
*
1966281 TAATTAATATTTAAA
1 AAATTAATATTTAAA
1966296 AAATTAA-ATTT
1 AAATTAATATTT
1966307 TGAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 4 0.17
15 16 0.70
16 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTAATATTTAAA
Found at i:1966871 original size:26 final size:26
Alignment explanation
Indices: 1966842--1966891 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1966832 AAATTTATAT
1966842 TATTATATAAAATAATAATAATAAAA
1 TATTATATAAAATAATAATAATAAAA
* *
1966868 TATTTTATATAATAATAATAATAA
1 TATTATATAAAATAATAATAATAA
1966892 TTTAGATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TATTATATAAAATAATAATAATAAAA
Found at i:1966903 original size:23 final size:23
Alignment explanation
Indices: 1966853--1966905 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1966843 ATTATATAAA
**
1966853 ATAATAATAATAAAATATTTTAT
1 ATAATAATAATAAAATATTAGAT
1966876 ATAATAATAATAATAAT-TTAGAT
1 ATAATAATAATAA-AATATTAGAT
*
1966899 CTAATAA
1 ATAATAA
1966906 ATCAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAATAATAATAAAATATTAGAT
Found at i:1968561 original size:15 final size:16
Alignment explanation
Indices: 1968541--1968570 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1968531 TTTTGCTTTT
1968541 TTTTTTTTAA-ATTTA
1 TTTTTTTTAATATTTA
1968556 TTTTTTTTAATATTT
1 TTTTTTTTAATATTT
1968571 GCCGATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTAATATTTA
Found at i:1968646 original size:13 final size:14
Alignment explanation
Indices: 1968630--1968671 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
1968620 TTTAAAATTT
1968630 TAAATAAATTAA-A
1 TAAATAAATTAATA
1968643 TAAATAAATTAATA
1 TAAATAAATTAATA
1968657 T-AA-AAATTAAT-
1 TAAATAAATTAATA
1968668 TAAA
1 TAAA
1968672 ATTTATACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 10 0.37
13 14 0.52
14 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAAATTAATA
Found at i:1968730 original size:39 final size:42
Alignment explanation
Indices: 1968633--1968745 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 42
1968623 AAAATTTTAA
*
1968633 ATAAATTAAAT-AAATAAATTAATATAAAAATTAATTAAAATTT
1 ATAAATTAAATAAAATAAA-TAA-ATTAAAATTAATTAAAATTT
* * **
1968676 ATACAAGTAATTAAAATAAATAAATTAAAATTAA-T-CGA-TT
1 ATA-AATTAAATAAAATAAATAAATTAAAATTAATTAAAATTT
* *
1968716 ATAAATTAAATAAAATAATTAAATTTAAAT
1 ATAAATTAAATAAAATAAATAAATTAAAAT
1968746 ATAGATAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
39 23 0.39
40 5 0.08
41 1 0.02
42 1 0.02
43 13 0.22
44 9 0.15
45 7 0.12
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (42 bp):
ATAAATTAAATAAAATAAATAAATTAAAATTAATTAAAATTT
Found at i:1968797 original size:19 final size:20
Alignment explanation
Indices: 1968633--1968811 Score: 77
Period size: 19 Copynumber: 8.7 Consensus size: 20
1968623 AAAATTTTAA
1968633 ATAAATTAAATAAATAAATTAAT
1 ATAAATTAAAT--ATAAA-TAAT
* *
1968656 ATAAAAATTAATTA-AAAT-TT
1 AT--AAATTAAATATAAATAAT
* *
1968676 ATACAAGTAATTA-AAATAA-
1 ATA-AATTAAATATAAATAAT
* *
1968695 ATAAATTAAA-ATTAATCGATT
1 ATAAATTAAATATAAAT--AAT
1968716 ATAAATTAAATA-AAATAAT
1 ATAAATTAAATATAAATAAT
*
1968735 -TAAATTTAAATATAGATAAT
1 ATAAA-TTAAATATAAATAAT
* *
1968755 ATAATTATTGATTAGTAAAATAAT
1 ATAA--ATTAAATA-T-AAATAAT
*
1968779 -TAAATTAAATATAATTAAT
1 ATAAATTAAATATAAATAAT
* *
1968798 ATAAGTAAAATATA
1 ATAAATTAAATATA
1968812 TAATTAATTT
Statistics
Matches: 120, Mismatches: 19, Indels: 37
0.68 0.11 0.21
Matches are distributed among these distances:
17 1 0.01
18 13 0.11
19 30 0.25
20 22 0.18
21 23 0.19
22 9 0.08
23 8 0.07
24 6 0.05
25 8 0.07
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAAATTAAATATAAATAAT
Found at i:1971194 original size:2 final size:2
Alignment explanation
Indices: 1971187--1971215 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1971177 TGTTGTTTTT
1971187 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1971216 TTGTATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1980518 original size:12 final size:12
Alignment explanation
Indices: 1980501--1980529 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1980491 ATATGTTAGG
1980501 ATAAGGCTTCAA
1 ATAAGGCTTCAA
1980513 ATAAGGCTTCAA
1 ATAAGGCTTCAA
1980525 ATAAG
1 ATAAG
1980530 ATTGTCATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (12 bp):
ATAAGGCTTCAA
Found at i:1985534 original size:17 final size:19
Alignment explanation
Indices: 1985499--1985540 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1985489 AATGTATCGA
*
1985499 ATATTTTTATTATATTTAT
1 ATATTTTTATAATATTTAT
1985518 ATATTTTT-TAATA-TTAT
1 ATATTTTTATAATATTTAT
1985535 A-ATTTT
1 ATATTTT
1985541 GTTGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 4 0.18
19 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTTTTATAATATTTAT
Found at i:1989227 original size:2 final size:2
Alignment explanation
Indices: 1989220--1989248 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1989210 AAAATTTTCT
1989220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1989249 GAGAAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1990261 original size:18 final size:16
Alignment explanation
Indices: 1990229--1990264 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
1990219 AGTTGATTCG
1990229 ATTTAAATTATTATTT
1 ATTTAAATTATTATTT
1990245 ATTTAAATTTAATTATTT
1 ATTTAAA-TT-ATTATTT
1990263 AT
1 AT
1990265 AAAAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTAAATTATTATTT
Found at i:1990772 original size:22 final size:21
Alignment explanation
Indices: 1990731--1990771 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1990721 ATATATTTTT
1990731 ATATAAATTTAATTGTAAAAC
1 ATATAAATTTAATTGTAAAAC
1990752 ATATAAATATTAATT-TAAAA
1 ATATAAAT-TTAATTGTAAAA
1990772 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATATAAATTTAATTGTAAAAC
Found at i:1994715 original size:57 final size:57
Alignment explanation
Indices: 1994641--1994761 Score: 233
Period size: 57 Copynumber: 2.1 Consensus size: 57
1994631 GCAGAAGCCG
*
1994641 TTTCATCTAACCCTCTAGGTGGTGATTTGGATTTTCCATCTCTAGCAACCCATCTCT
1 TTTCTTCTAACCCTCTAGGTGGTGATTTGGATTTTCCATCTCTAGCAACCCATCTCT
1994698 TTTCTTCTAACCCTCTAGGTGGTGATTTGGATTTTCCATCTCTAGCAACCCATCTCT
1 TTTCTTCTAACCCTCTAGGTGGTGATTTGGATTTTCCATCTCTAGCAACCCATCTCT
1994755 TTTCTTC
1 TTTCTTC
1994762 ATACCTATAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.41
Consensus pattern (57 bp):
TTTCTTCTAACCCTCTAGGTGGTGATTTGGATTTTCCATCTCTAGCAACCCATCTCT
Found at i:1996912 original size:2 final size:2
Alignment explanation
Indices: 1996905--1996937 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1996895 ATCTACGAAC
1996905 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1996938 CGATGATGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1997311 original size:11 final size:11
Alignment explanation
Indices: 1997288--1997321 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1997278 TAACAAAATA
*
1997288 TTTATATTATT
1 TTTATATTTTT
*
1997299 TTTATGTTTTT
1 TTTATATTTTT
1997310 TTTATATTTTT
1 TTTATATTTTT
1997321 T
1 T
1997322 ATGATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTATATTTTT
Found at i:1997368 original size:28 final size:28
Alignment explanation
Indices: 1997334--1997389 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1997324 GATTAAAATA
*
1997334 ATATATTTATA-TAAATTTTAATATATTT
1 ATATATTAATATTAAATTTTAAT-TATTT
*
1997362 ATATATTAATATTATATTTTAATTATTT
1 ATATATTAATATTAAATTTTAATTATTT
1997390 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATATTAATATTAAATTTTAATTATTT
Found at i:1997382 original size:20 final size:21
Alignment explanation
Indices: 1997311--1997382 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 21
1997301 TATGTTTTTT
* *
1997311 TTATAT-TTTTTATGATTAAAA
1 TTATATATTTATAT-ATTAATA
* *
1997332 TAATATATTTATATA--AATT
1 TTATATATTTATATATTAATA
1997351 TTAATATATTTATATATTAATA
1 TT-ATATATTTATATATTAATA
1997373 TTATAT-TTTA
1 TTATATATTTA
1997383 ATTATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 3 0.07
20 17 0.41
21 10 0.24
22 11 0.27
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
TTATATATTTATATATTAATA
Found at i:2001864 original size:27 final size:26
Alignment explanation
Indices: 2001834--2001885 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2001824 AATTAATTTT
*
2001834 TTATTTTTATTATATTAATTAAAAATA
1 TTATTTTT-TAATATTAATTAAAAATA
2001861 TTATTTTTTAATATTAATTAAAAAT
1 TTATTTTTTAATATTAATTAAAAAT
2001886 TAAACAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATTTTTTAATATTAATTAAAAATA
Found at i:2010033 original size:2 final size:2
Alignment explanation
Indices: 2010028--2010057 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2010018 CAAGGTTTAC
2010028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2010058 TTGCATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2018644 original size:13 final size:13
Alignment explanation
Indices: 2018626--2018653 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2018616 AAAGCCCTTA
2018626 ACCCACTCTGCAC
1 ACCCACTCTGCAC
2018639 ACCCACTCTGCAC
1 ACCCACTCTGCAC
2018652 AC
1 AC
2018654 GTAAGGGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.54, G:0.07, T:0.14
Consensus pattern (13 bp):
ACCCACTCTGCAC
Found at i:2028815 original size:40 final size:40
Alignment explanation
Indices: 2028757--2028863 Score: 196
Period size: 40 Copynumber: 2.7 Consensus size: 40
2028747 TGTATTCCCT
2028757 TAAAGTGAGACATTGTTAATGAAATATTGATAATTTTTGA
1 TAAAGTGAGACATTGTTAATGAAATATTGATAATTTTTGA
*
2028797 TAAAGTGAGACATCGTTAATGAAATATTGATAATTTTTGA
1 TAAAGTGAGACATTGTTAATGAAATATTGATAATTTTTGA
*
2028837 TAAAGTAAGACATTGTTAATGAAATAT
1 TAAAGTGAGACATTGTTAATGAAATAT
2028864 ATGAGAGTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (40 bp):
TAAAGTGAGACATTGTTAATGAAATATTGATAATTTTTGA
Found at i:2031006 original size:17 final size:18
Alignment explanation
Indices: 2030978--2031024 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
2030968 TTAGTTACTC
2030978 ATTTATAATTATAAAT-AA
1 ATTTA-AATTATAAATAAA
**
2030996 ATTTAAATTATATTTAAA
1 ATTTAAATTATAAATAAA
2031014 ATTTAAATTAT
1 ATTTAAATTAT
2031025 CATTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAAATTATAAATAAA
Found at i:2031015 original size:18 final size:19
Alignment explanation
Indices: 2030994--2031034 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
2030984 AATTATAAAT
2030994 AAATTTAAATTAT-ATTTA
1 AAATTTAAATTATCATTTA
*
2031012 AAATTTAAATTATCATTTT
1 AAATTTAAATTATCATTTA
2031031 AAAT
1 AAAT
2031035 GAATTTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTAAATTATCATTTA
Found at i:2032174 original size:2 final size:2
Alignment explanation
Indices: 2032169--2032203 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
2032159 ACAAACCTTC
*
2032169 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2032204 TTTGAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2034655 original size:21 final size:21
Alignment explanation
Indices: 2034626--2034675 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2034616 ACAATTTAAA
*
2034626 AAATATAATAACTA-AAATATT
1 AAATATAATAA-TACAAAAATT
*
2034647 AAATTTAATAATACAAAAATT
1 AAATATAATAATACAAAAATT
2034668 AAA-ATAAT
1 AAATATAAT
2034676 CTCTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATAATAATACAAAAATT
Found at i:2035249 original size:24 final size:23
Alignment explanation
Indices: 2035198--2035242 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
2035188 AATCTTATTC
*
2035198 AAATTATTTTTTAATTATATAAT
1 AAATTATTTTATAATTATATAAT
2035221 AAATTAATTTTATAATTATATA
1 AAATT-ATTTTATAATTATATA
2035243 TGTAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATTATTTTATAATTATATAAT
Found at i:2037780 original size:27 final size:26
Alignment explanation
Indices: 2037757--2037823 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 26
2037747 TTCAATTGAG
2037757 AAAATATATATTT-ATTTTTAAATTA
1 AAAATATATATTTAATTTTTAAATTA
* *
2037782 TAAATATTAAGATTTAATTTTTAAATTA
1 AAAATA-T-ATATTTAATTTTTAAATTA
2037810 ATAAA-ATATTATTT
1 A-AAATATA-TATTT
2037824 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 10 0.30
28 13 0.39
29 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
AAAATATATATTTAATTTTTAAATTA
Found at i:2037807 original size:28 final size:29
Alignment explanation
Indices: 2037766--2037820 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
2037756 GAAAATATAT
2037766 ATTTATTTTTAAATT-AT-AAATATTAAG
1 ATTTATTTTTAAATTAATAAAATATTAAG
2037793 ATTTAATTTTTAAATTAATAAAATATTA
1 ATTT-ATTTTTAAATTAATAAAATATTA
2037821 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 4 0.16
28 11 0.44
29 2 0.08
30 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
ATTTATTTTTAAATTAATAAAATATTAAG
Found at i:2047045 original size:11 final size:11
Alignment explanation
Indices: 2047029--2047068 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2047019 GTCAATTACT
2047029 TTAAAATAAAA
1 TTAAAATAAAA
2047040 TTAAAATAATAA
1 TTAAAATAA-AA
* *
2047052 TAAAAATATAA
1 TTAAAATAAAA
2047063 TTAAAA
1 TTAAAA
2047069 ATATTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TTAAAATAAAA
Found at i:2047072 original size:12 final size:12
Alignment explanation
Indices: 2047031--2047072 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
2047021 CAATTACTTT
*
2047031 AAAATAAAATT-
1 AAAATATAATTA
2047042 AAAATAATAA-TA
1 AAAAT-ATAATTA
2047054 AAAATATAATTA
1 AAAATATAATTA
2047066 AAAATAT
1 AAAATAT
2047073 TTATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATATAATTA
Found at i:2049755 original size:21 final size:22
Alignment explanation
Indices: 2049725--2049766 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2049715 CTTTTAGATG
2049725 TTTATA-TTTTTAATTATATTTA
1 TTTATATTTTTTAA-TATATTTA
2049747 TTTA-ATTTTTTAATATATTT
1 TTTATATTTTTTAATATATTT
2049767 TAAAGAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATATTTTTTAATATATTTA
Found at i:2050397 original size:16 final size:16
Alignment explanation
Indices: 2050367--2050396 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2050357 GAGGTGTGAA
2050367 GAAGAAGAATAAAAAT
1 GAAGAAGAATAAAAAT
2050383 GAAGAA-AATAAAAA
1 GAAGAAGAATAAAAA
2050397 AACATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (16 bp):
GAAGAAGAATAAAAAT
Found at i:2051554 original size:26 final size:24
Alignment explanation
Indices: 2051503--2051555 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
2051493 TATTTATAAT
* *
2051503 TTTAAATATTTAAATTTGAATCTA
1 TTTAAATATTTAAATATAAATCTA
*
2051527 TTTAATATATTTAAAATATAAATTTA
1 TTTAA-ATATTT-AAATATAAATCTA
2051553 TTT
1 TTT
2051556 TTTATTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAAATATTTAAATATAAATCTA
Found at i:2051598 original size:17 final size:17
Alignment explanation
Indices: 2051578--2051616 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2051568 AGTATTCAAT
2051578 TTAAATA-ATAATATCTA
1 TTAAATATATAA-ATCTA
*
2051595 TTAAATATATAAATTTA
1 TTAAATATATAAATCTA
2051612 TTAAA
1 TTAAA
2051617 CTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATATATAAATCTA
Found at i:2053738 original size:24 final size:23
Alignment explanation
Indices: 2053702--2053776 Score: 84
Period size: 24 Copynumber: 3.3 Consensus size: 23
2053692 ATTAATTTTG
*
2053702 AAATTTATA-ATAATAATAATAAT
1 AAATTTAAATATAATAAT-ATAAT
2053725 AAATTTAAATATAATTAATATAAT
1 AAATTTAAATATAA-TAATATAAT
* *
2053749 ATATTT-AATAT-ATATTATAAT
1 AAATTTAAATATAATAATATAAT
2053770 AAATTTA
1 AAATTTA
2053777 TTTTAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
21 13 0.29
22 1 0.02
23 13 0.29
24 14 0.31
25 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATTTAAATATAATAATATAAT
Found at i:2053804 original size:18 final size:18
Alignment explanation
Indices: 2053774--2053817 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
2053764 TATAATAAAT
2053774 TTAT-TTTAAAATTT-TG
1 TTATATTTAAAATTTATG
2053790 TTATATTTAATAATTTATG
1 TTATATTTAA-AATTTATG
*
2053809 TAATATTTA
1 TTATATTTA
2053818 TATTTATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 5 0.21
19 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATATTTAAAATTTATG
Found at i:2054310 original size:54 final size:54
Alignment explanation
Indices: 2054245--2054355 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
2054235 ATTTATAATT
2054245 AAGCAGCGTCTAGATTTCATAGTGCCTCTTATAGAATTAATTATGTAAAATCAG
1 AAGCAGCGTCTAGATTTCATAGTGCCTCTTATAGAATTAATTATGTAAAATCAG
2054299 AAGCAGCGTCTAGATTTCATAGTGCCTCTTATAGAATTAATTATGTAAAATCAG
1 AAGCAGCGTCTAGATTTCATAGTGCCTCTTATAGAATTAATTATGTAAAATCAG
2054353 AAG
1 AAG
2054356 TTGGCAACGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (54 bp):
AAGCAGCGTCTAGATTTCATAGTGCCTCTTATAGAATTAATTATGTAAAATCAG
Found at i:2054984 original size:20 final size:20
Alignment explanation
Indices: 2054943--2054986 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2054933 ATTTATACAA
*
2054943 TATATTATGTTAATTATATT
1 TATATTATATTAATTATATT
*
2054963 TATATTATATTTA-TATATT
1 TATATTATATTAATTATATT
2054982 T-TATT
1 TATATT
2054987 TAAAATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATATTATATTAATTATATT
Found at i:2056168 original size:16 final size:16
Alignment explanation
Indices: 2056147--2056185 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2056137 TTTGGTCAAA
2056147 ATATACATACATATAC
1 ATATACATACATATAC
* *
2056163 ATATACATATATATAT
1 ATATACATACATATAC
2056179 ATATACA
1 ATATACA
2056186 CGTATACGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATACATACATATAC
Found at i:2056405 original size:18 final size:16
Alignment explanation
Indices: 2056365--2056395 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2056355 TTAAGTTTGT
2056365 ATTATTTTAAATTTAA
1 ATTATTTTAAATTTAA
2056381 ATTATTTT-AATTTAA
1 ATTATTTTAAATTTAA
2056396 TAAATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:2057361 original size:15 final size:16
Alignment explanation
Indices: 2057331--2057364 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2057321 TAATAATTTT
2057331 TATTGAATTTTATTAA
1 TATTGAATTTTATTAA
*
2057347 TATTG-ATTTTTTTAA
1 TATTGAATTTTATTAA
2057362 TAT
1 TAT
2057365 AATTACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
TATTGAATTTTATTAA
Found at i:2057560 original size:20 final size:18
Alignment explanation
Indices: 2057525--2057573 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
2057515 CATTACTTTT
2057525 TATTTTTTATTTATTTCA
1 TATTTTTTATTTATTTCA
2057543 TATTTTTATATATTATTTCA
1 TATTTTT-TAT-TTATTTCA
*
2057563 T-TTATTTATTT
1 TATTTTTTATTT
2057574 CATCTGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 7 0.25
20 9 0.32
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTTATTTATTTCA
Found at i:2057970 original size:21 final size:22
Alignment explanation
Indices: 2057941--2057989 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2057931 TTTATAATTG
* *
2057941 TATTT-ATTTATATTATTAAAT
1 TATTTAATTTATATAAATAAAT
*
2057962 T-TTTAATTTTTATAAATAAAT
1 TATTTAATTTATATAAATAAAT
2057983 TATTTAA
1 TATTTAA
2057990 ATTAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTAATTTATATAAATAAAT
Found at i:2058005 original size:14 final size:13
Alignment explanation
Indices: 2057964--2058011 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
2057954 TATTAAATTT
2057964 TTAATTTTTATAAA
1 TTAATTTTT-TAAA
* *
2057978 TAAATTATTTAAA
1 TTAATTTTTTAAA
2057991 TTAATTTTGTTAAA
1 TTAATTTT-TTAAA
2058005 -TAATTTT
1 TTAATTTT
2058012 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TTAATTTTTTAAA
Found at i:2058200 original size:19 final size:19
Alignment explanation
Indices: 2058176--2058222 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
2058166 TTTTATAAAA
2058176 ATAAAAATTTATAATTTAT
1 ATAAAAATTTATAATTTAT
2058195 ATAAAAATTTATAATTTAT
1 ATAAAAATTTATAATTTAT
2058214 ATAAAAATT
1 ATAAAAATT
2058223 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAAAAATTTATAATTTAT
Found at i:2058210 original size:26 final size:24
Alignment explanation
Indices: 2058162--2058221 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 24
2058152 ATTTAATGAA
2058162 ATAATTTTATAAAAATAAAAATTT
1 ATAATTTTATAAAAATAAAAATTT
2058186 ATAA-TTTAT----ATAAAAATTT
1 ATAATTTTATAAAAATAAAAATTT
2058205 ATAATTTATATAAAAAT
1 ATAATTT-TATAAAAAT
2058222 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
19 14 0.47
20 2 0.07
21 3 0.10
23 5 0.17
24 4 0.13
25 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAATTTTATAAAAATAAAAATTT
Found at i:2058649 original size:13 final size:12
Alignment explanation
Indices: 2058590--2058650 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 12
2058580 TAAGGTTCTT
*
2058590 TTAAAATTTATGA
1 TTAAAATATAT-A
2058603 TTAAAATATAT-
1 TTAAAATATATA
*
2058614 TTAAAATTATTTAA
1 TTAAAA-TATAT-A
*
2058628 TTTAAATATACTA
1 TTAAAATATA-TA
2058641 TTAAAATATA
1 TTAAAATATA
2058651 AATTTTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 6 0.15
12 4 0.10
13 23 0.59
14 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (12 bp):
TTAAAATATATA
Found at i:2059121 original size:20 final size:20
Alignment explanation
Indices: 2059069--2059121 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2059059 GTACCTAATT
*
2059069 TTATTTAAATAAAAATAAAA
1 TTATTTATATAAAAATAAAA
* * *
2059089 ATACTTT-TTTAAAAATTAAA
1 TTA-TTTATATAAAAATAAAA
2059109 TTATTTATATAAA
1 TTATTTATATAAA
2059122 TTTTTATTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
19 3 0.12
20 19 0.76
21 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTATTTATATAAAAATAAAA
Found at i:2064727 original size:58 final size:59
Alignment explanation
Indices: 2064654--2064769 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 59
2064644 GAATCTTAAA
2064654 ATTTAAACTAAGTAATGTATTTATGGGGAGATCCTTGTTAAACTATGTTACTGGATTTGG
1 ATTTAAAC-AAGTAATGTATTTATGGGGAGATCCTTGTTAAACTATGTTACTGGATTTGG
* * *
2064714 ATTTAAA-AAGTAATGTATTTATGGGGAGATTCTTGTTCAGCTATGTTACTGGATTT
1 ATTTAAACAAGTAATGTATTTATGGGGAGATCCTTGTTAAACTATGTTACTGGATTT
2064770 AAAATGATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
58 46 0.87
60 7 0.13
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (59 bp):
ATTTAAACAAGTAATGTATTTATGGGGAGATCCTTGTTAAACTATGTTACTGGATTTGG
Found at i:2065296 original size:2 final size:2
Alignment explanation
Indices: 2065289--2065337 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
2065279 CCTAGACTGC
*
2065289 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2065329 AT AT A- AT AT
1 AT AT AT AT AT
2065338 GTATGTACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2065470 original size:23 final size:21
Alignment explanation
Indices: 2065435--2065477 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
2065425 GGTACTTGTA
*
2065435 TCTTTTATTTTATTTTTTTAC
1 TCTTTTATTTTATGTTTTTAC
2065456 TCTTTTGACTTTTATGTTTTTA
1 TCTTTT-A-TTTTATGTTTTTA
2065478 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (21 bp):
TCTTTTATTTTATGTTTTTAC
Found at i:2066178 original size:21 final size:20
Alignment explanation
Indices: 2066136--2066178 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2066126 GTTAATGGGC
* *
2066136 TTTTCATTTTTCTATTGCTT
1 TTTTAATTTTTCTATTACTT
2066156 TTTTAATTTTTCTTATTA-TT
1 TTTTAATTTTTC-TATTACTT
2066176 TTT
1 TTT
2066179 AGTATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTAATTTTTCTATTACTT
Found at i:2068548 original size:24 final size:22
Alignment explanation
Indices: 2068521--2068580 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
2068511 TTTTTTAAAA
*
2068521 ATAATTATATATTTTGAATTTGAT
1 ATAATTATATATTTT-AA-TTAAT
2068545 ATAATTAATTATATTTTAATTAAT
1 ATAATT-A-TATATTTTAATTAAT
2068569 A-AATT-TATATTT
1 ATAATTATATATTT
2068581 AATACATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 7 0.21
23 4 0.12
24 11 0.33
25 3 0.09
26 8 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
ATAATTATATATTTTAATTAAT
Found at i:2069115 original size:27 final size:27
Alignment explanation
Indices: 2069059--2069118 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
2069049 ACCTACTTTT
*
2069059 TTTAAAAAAATATAAATTTTATAATAA
1 TTTAAAAAAATATAAATATTATAATAA
* * *
2069086 TTTAAAAAATTATCATATATTAT-ATGA
1 TTTAAAAAAATAT-AAATATTATAATAA
2069113 TTTAAA
1 TTTAAA
2069119 TTTAAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
TTTAAAAAAATATAAATATTATAATAA
Found at i:2069523 original size:20 final size:20
Alignment explanation
Indices: 2069498--2069535 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2069488 GCTATTATAT
2069498 TTAATA-TAAAAATATATTAA
1 TTAATATTAAAAA-ATATTAA
2069518 TTAATATTAAAAAATATT
1 TTAATATTAAAAAATATT
2069536 TAAAAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATATTAAAAAATATTAA
Found at i:2070459 original size:20 final size:19
Alignment explanation
Indices: 2070426--2070490 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
2070416 ACAATGTATA
*
2070426 AATAT-TATTAAATATAATT
1 AATATATATTTAATAT-ATT
2070445 AATATATATTTAATATATT
1 AATATATATTTAATATATT
* * *
2070464 ATATTTATATTTAAAATTTT
1 A-ATATATATTTAATATATT
2070484 AATATAT
1 AATATAT
2070491 TTTTTAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATATATTTAATATATT
Found at i:2070627 original size:30 final size:30
Alignment explanation
Indices: 2070593--2070649 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2070583 CAAATGAATT
2070593 AATTAAATAAAAT-TAAAAAAATTATGAGTA
1 AATTAAA-AAAATATAAAAAAATTATGAGTA
*
2070623 AATTAAAAATATATAAAAAAATTATGA
1 AATTAAAAAAATATAAAAAAATTATGA
2070650 CATATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (30 bp):
AATTAAAAAAATATAAAAAAATTATGAGTA
Found at i:2070844 original size:32 final size:32
Alignment explanation
Indices: 2070756--2070850 Score: 90
Period size: 32 Copynumber: 3.0 Consensus size: 32
2070746 AATATTAATT
* **
2070756 AAATATATTAAA-A-TT-TTAAATATAAATAAA
1 AAATATATTAAATATTTATTAAAT-TATATTTA
*
2070786 AAATATATAAAAATATTATATT-AATTATATTTA
1 AAATATAT-TAAATATT-TATTAAATTATATTTA
*
2070819 AAATATATTAAATATTTATTAAATTATTTTTA
1 AAATATATTAAATATTTATTAAATTATATTTA
2070851 TGAAATAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
30 8 0.15
31 7 0.13
32 18 0.34
33 14 0.26
34 4 0.08
35 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
AAATATATTAAATATTTATTAAATTATATTTA
Found at i:2073443 original size:16 final size:16
Alignment explanation
Indices: 2073401--2073485 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 16
2073391 TTTATTTTTG
* *
2073401 ATATTTAGAT-TTTAA
1 ATATTTATATATTTAT
2073416 AT-TTTATA-ATTTAT
1 ATATTTATATATTTAT
2073430 ATATTTATATATTTTATT
1 ATATTTATATA-TTTA-T
*
2073448 ATATTAAAATTATATTTA-
1 ATATT--TA-TATATTTAT
*
2073466 ATATATATTATATTTAT
1 ATATTTA-TATATTTAT
2073483 ATA
1 ATA
2073486 ATTTTTAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
14 11 0.20
15 8 0.14
16 11 0.20
17 7 0.12
18 10 0.18
20 5 0.09
21 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (16 bp):
ATATTTATATATTTAT
Found at i:2073451 original size:20 final size:20
Alignment explanation
Indices: 2073419--2073517 Score: 58
Period size: 20 Copynumber: 5.3 Consensus size: 20
2073409 ATTTTAAATT
2073419 TTATA-ATTTATATATT-TA
1 TTATATATTTATATATTATA
*
2073437 -TATAT-TTTATTATATTAAA
1 TTATATATTTA-TATATTATA
*
2073456 AT-TATATTTA-ATA-TATA
1 TTATATATTTATATATTATA
2073473 -T-TATATTTATATAATT-T-
1 TTATATATTTATAT-ATTATA
* *
2073490 TTAATATATTAATAAATTATA
1 TT-ATATATTTATATATTATA
2073511 TTATATA
1 TTATATA
2073518 AATTTTAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
16 9 0.14
17 13 0.20
18 12 0.19
19 8 0.12
20 20 0.31
21 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATATTTATATATTATA
Found at i:2073452 original size:18 final size:18
Alignment explanation
Indices: 2073416--2073574 Score: 58
Period size: 18 Copynumber: 8.6 Consensus size: 18
2073406 TAGATTTTAA
*
2073416 ATTT-TATAATTTA-TAT
1 ATTTATATATTTTATTAT
2073432 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
* * *
2073450 ATTAAAATTATATTTAATAT
1 ATTTATA-TAT-TTTATTAT
* *
2073470 ATATTATAT-TTATATAAT
1 AT-TTATATATTTTATTAT
* *
2073488 TTTTAATATATTAATAAATTAT
1 ATTT-ATATATT--T-TATTAT
* **
2073510 ATTATATAAATTTTAAAAT
1 ATT-TATATATTTTATTAT
* *
2073529 ATTCATATATTCATATTAT
1 ATTTATATATT-TTATTAT
*
2073548 -TTTTTATATTTTAATTAT
1 ATTTATATATTTT-ATTAT
*
2073566 -TTTTTATAT
1 ATTTATATAT
2073575 CATATCTAAT
Statistics
Matches: 104, Mismatches: 26, Indels: 24
0.68 0.17 0.16
Matches are distributed among these distances:
16 4 0.04
17 11 0.11
18 46 0.44
19 16 0.15
20 11 0.11
21 3 0.03
22 12 0.12
23 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:2073474 original size:27 final size:27
Alignment explanation
Indices: 2073429--2073498 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
2073419 TTATAATTTA
*
2073429 TATATTTATATATTTTATTATATTAAAAT
1 TATATTTA-ATA-TATATTATATTAAAAT
* *
2073458 TATATTTAATATATATTATATTTATAT
1 TATATTTAATATATATTATATTAAAAT
* *
2073485 AATTTTTAATATAT
1 TATATTTAATATAT
2073499 TAATAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 25 0.69
28 3 0.08
29 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TATATTTAATATATATTATATTAAAAT
Found at i:2073516 original size:45 final size:43
Alignment explanation
Indices: 2073429--2073517 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 43
2073419 TTATAATTTA
*
2073429 TATATTTATATATTTTATTATATTAAAATTATATTTAATATATAT
1 TATATTTATATATTTTAATATATTAAAATTATA-TT-ATATATAT
2073474 TATATTTATATAATTTTTAATATATTAATAAATTATATTATATA
1 TATATTTATAT-A-TTTTAATATATT-A-AAATTATATTATATA
2073518 AATTTTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
45 11 0.28
46 1 0.03
47 16 0.41
48 3 0.08
49 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (43 bp):
TATATTTATATATTTTAATATATTAAAATTATATTATATATAT
Found at i:2073518 original size:32 final size:32
Alignment explanation
Indices: 2073428--2073547 Score: 102
Period size: 32 Copynumber: 3.7 Consensus size: 32
2073418 TTTATAATTT
* * * *
2073428 ATATATTTATATATTTTATTATATTAAA-ATT-
1 ATATATTAATAAATTATATTATA-TAAATTTTA
*
2073459 ATAT-TTAATATATATTATATTTATATAATTTTTA
1 ATATATTAATA-A-ATTATA-TTATATAAATTTTA
2073493 ATATATTAATAAATTATATTATATAAATTTTA
1 ATATATTAATAAATTATATTATATAAATTTTA
* * *
2073525 AAATATTCATATATTCATATTAT
1 ATATATTAATAAATT-ATATTAT
2073548 TTTTTATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
30 5 0.07
31 4 0.05
32 33 0.45
33 20 0.27
34 5 0.07
35 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (32 bp):
ATATATTAATAAATTATATTATATAAATTTTA
Found at i:2073546 original size:33 final size:32
Alignment explanation
Indices: 2073468--2073547 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 32
2073458 TATATTTAAT
* *
2073468 ATATATTATATTTATATAATTTTTAATATATTA
1 ATATATTATA-TTATATAAATTTTAAAATATTA
* *
2073501 ATAAATTATATTATATAAATTTTAAAATATTC
1 ATATATTATATTATATAAATTTTAAAATATTA
2073533 ATATATTCATATTAT
1 ATATATT-ATATTAT
2073548 TTTTTATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 25 0.61
33 16 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (32 bp):
ATATATTATATTATATAAATTTTAAAATATTA
Found at i:2074446 original size:2 final size:2
Alignment explanation
Indices: 2074441--2074481 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2074431 AGAAACCAAA
2074441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2074482 AGATGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2074654 original size:21 final size:20
Alignment explanation
Indices: 2074628--2074677 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2074618 AAATTTTTAT
*
2074628 AAAAATAATTGATTAAAGATA
1 AAAAAT-ATTGATTAAAAATA
**
2074649 AAAAATATTTTTTAAAAATA
1 AAAAATATTGATTAAAAATA
*
2074669 AAAACTATT
1 AAAAATATT
2074678 AACAAGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAAATATTGATTAAAAATA
Found at i:2074663 original size:20 final size:20
Alignment explanation
Indices: 2074640--2074677 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2074630 AAATAATTGA
*
2074640 TTAAAGATAAAAAATATTTT
1 TTAAAAATAAAAAATATTTT
*
2074660 TTAAAAATAAAAACTATT
1 TTAAAAATAAAAAATATT
2074678 AACAAGTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
TTAAAAATAAAAAATATTTT
Found at i:2074795 original size:2 final size:2
Alignment explanation
Indices: 2074788--2074818 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2074778 ATTTAAAAAT
*
2074788 TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2074819 TGGATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2076018 original size:31 final size:31
Alignment explanation
Indices: 2075983--2076043 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
2075973 TCTTTTTATC
2075983 TCGTTATTATTTTTCATTATCTACTTTAATA
1 TCGTTATTATTTTTCATTATCTACTTTAATA
*
2076014 TCGTTATTATTTTTCGTTATCTACTTTAAT
1 TCGTTATTATTTTTCATTATCTACTTTAAT
2076044 GTCTTAACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (31 bp):
TCGTTATTATTTTTCATTATCTACTTTAATA
Found at i:2076139 original size:20 final size:20
Alignment explanation
Indices: 2076103--2076142 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2076093 ATTTTGTATC
2076103 TTATTATATTTTATCATATT
1 TTATTATATTTTATCATATT
*
2076123 TTATT-TATTTATTTCATATT
1 TTATTATATTT-TATCATATT
2076143 GTTTTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTATATTTTATCATATT
Found at i:2087979 original size:27 final size:27
Alignment explanation
Indices: 2087939--2088014 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
2087929 ACAACAAGCT
* *
2087939 ACCATTATTGACAAACAAAAAAAAACC
1 ACCATTTTTGACAAACACAAAAAAACC
* ** *
2087966 ATCATTTTTGACAAACACAAAGTAACT
1 ACCATTTTTGACAAACACAAAAAAACC
2087993 ACCATTTTTGACAAACACAAAA
1 ACCATTTTTGACAAACACAAAA
2088015 GGTGACTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.22
Consensus pattern (27 bp):
ACCATTTTTGACAAACACAAAAAAACC
Found at i:2091113 original size:24 final size:24
Alignment explanation
Indices: 2091085--2091130 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2091075 AATAAAAATC
2091085 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* * *
2091109 AGCCACCATTTTTTACATACAA
1 AGCCACCAATTTTGACAAACAA
2091131 AAATAACCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:2091156 original size:28 final size:28
Alignment explanation
Indices: 2091125--2091188 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
2091115 CATTTTTTAC
*
2091125 ATACAAA-AATAACCATCATATTTGACAA
1 ATACAAAGAA-AACCACCATATTTGACAA
*
2091153 ATACAAAGGAAACCACCATATTTGACAA
1 ATACAAAGAAAACCACCATATTTGACAA
2091181 ATACAAAG
1 ATACAAAG
2091189 GGTCGCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.20
Consensus pattern (28 bp):
ATACAAAGAAAACCACCATATTTGACAA
Found at i:2091189 original size:28 final size:28
Alignment explanation
Indices: 2091135--2091189 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
2091125 ATACAAAAAT
*
2091135 AACCATCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
2091163 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
2091190 GTCGCATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:2095667 original size:24 final size:24
Alignment explanation
Indices: 2095639--2095684 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2095629 AATAAAAATT
2095639 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* * *
2095663 AGCCACCATTTTTTACATACAA
1 AGCCACCAATTTTGACAAACAA
2095685 AAATAACCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:2095710 original size:28 final size:28
Alignment explanation
Indices: 2095679--2095742 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
2095669 CATTTTTTAC
*
2095679 ATACAAA-AATAACCATCATATTTGACAA
1 ATACAAAGAA-AACCACCATATTTGACAA
* *
2095707 ATACAAAGGAAATCACCATATTTGACAA
1 ATACAAAGAAAACCACCATATTTGACAA
2095735 ATACAAAG
1 ATACAAAG
2095743 GGTGACATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.22
Consensus pattern (28 bp):
ATACAAAGAAAACCACCATATTTGACAA
Found at i:2097490 original size:15 final size:14
Alignment explanation
Indices: 2097466--2097502 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
2097456 ATTATAATTG
*
2097466 TTAAAATATATAAA
1 TTAAAATATAAAAA
2097480 TTAATAATATAAAAA
1 TTAA-AATATAAAAA
2097495 TTAAAATA
1 TTAAAATA
2097503 CCCTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:2097854 original size:19 final size:20
Alignment explanation
Indices: 2097808--2097856 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
2097798 ATAATGAATT
**
2097808 ATATAATATTTTTATTTAATA
1 ATAT-ATATTTTTAAATAATA
2097829 ATA-ATATTTTTAAATAA-A
1 ATATATATTTTTAAATAATA
2097847 ATATATATTT
1 ATATATATTT
2097857 AAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 18 0.72
21 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATATTTTTAAATAATA
Found at i:2097857 original size:17 final size:17
Alignment explanation
Indices: 2097819--2097859 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
2097809 TATAATATTT
2097819 TTATTT-AATAATAATA
1 TTATTTAAATAATAATA
2097835 TT-TTTAAATAA-AATA
1 TTATTTAAATAATAATA
2097850 TATATTTAAA
1 T-TATTTAAA
2097860 ATTATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.36
16 8 0.36
17 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATTTAAATAATAATA
Found at i:2098046 original size:19 final size:20
Alignment explanation
Indices: 2098024--2098082 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 20
2098014 ATATGATACG
2098024 ATATGA-AAAAATAATATAA
1 ATATGACAAAAATAATATAA
* *
2098043 ATATGACATAAACAA-ATAA
1 ATATGACAAAAATAATATAA
* *
2098062 ATAT-ATAAAAAT-TTATAA
1 ATATGACAAAAATAATATAA
2098080 ATA
1 ATA
2098083 AAAATAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 12 0.38
19 14 0.44
20 6 0.19
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
ATATGACAAAAATAATATAA
Found at i:2098107 original size:21 final size:20
Alignment explanation
Indices: 2098075--2098113 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2098065 TATAAAAATT
2098075 TATAAATAAAAATAATTAAAA
1 TATAAATAAAAA-AATTAAAA
2098096 TATAACAT-AAAAAATTAA
1 TATAA-ATAAAAAAATTAA
2098114 CAAGACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
TATAAATAAAAAAATTAAAA
Found at i:2098312 original size:14 final size:14
Alignment explanation
Indices: 2098295--2098370 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
2098285 TGATCTTGTT
2098295 AATTTTTAAATTAA
1 AATTTTTAAATTAA
*
2098309 AATTTTTAAATTTA
1 AATTTTTAAATTAA
*** *
2098323 ACCATTAAAATTAAA
1 AATTTTTAAATT-AA
**
2098338 AATTCTTTTAAAAGAA
1 AA-T-TTTTAAATTAA
*
2098354 AATTTTTTAATTAA
1 AATTTTTAAATTAA
2098368 AAT
1 AAT
2098371 GCTAGATTAT
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
14 32 0.73
15 3 0.07
16 4 0.09
17 5 0.11
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (14 bp):
AATTTTTAAATTAA
Found at i:2098859 original size:56 final size:55
Alignment explanation
Indices: 2098791--2098957 Score: 262
Period size: 56 Copynumber: 3.0 Consensus size: 55
2098781 GACTTGTTTC
* * * *
2098791 ATAAATAGAATTATGGGCTTATTATATTTTTACTTTTATTTATATTTTTAAATTTT
1 ATAAATA-AATTATGGGATTATTATATTCTTAATTTTATTTATATTTTTTAATTTT
*
2098847 ATAAATGAAATTATAGGATTATTATATTCTTAATTTTATTTATATTTTTTAATTTT
1 ATAAAT-AAATTATGGGATTATTATATTCTTAATTTTATTTATATTTTTTAATTTT
2098903 ATAAATAAAATTATGGGATTATTATATTCTTAATTTTATTTATATTTTTTAATTT
1 ATAAAT-AAATTATGGGATTATTATATTCTTAATTTTATTTATATTTTTTAATTT
2098958 AAGAATTATG
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 102 0.99
57 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (55 bp):
ATAAATAAATTATGGGATTATTATATTCTTAATTTTATTTATATTTTTTAATTTT
Found at i:2098891 original size:18 final size:19
Alignment explanation
Indices: 2098868--2098904 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2098858 TATAGGATTA
2098868 TTATA-TTCTTAATTTTAT
1 TTATATTTCTTAATTTTAT
*
2098886 TTATATTTTTTAATTTTAT
1 TTATATTTCTTAATTTTAT
2098905 AAATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATATTTCTTAATTTTAT
Found at i:2099281 original size:18 final size:17
Alignment explanation
Indices: 2099234--2099285 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 17
2099224 TAAATATTTT
*
2099234 AAATTTATATAATATAT
1 AAATTTATATAATATAA
*
2099251 ATATTT-TAT-ATATAA
1 AAATTTATATAATATAA
2099266 AAATTTATATAAATATAA
1 AAATTTATAT-AATATAA
2099284 AA
1 AA
2099286 TATATTAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.34
16 6 0.21
17 5 0.17
18 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTATATAATATAA
Found at i:2099763 original size:5 final size:5
Alignment explanation
Indices: 2099753--2099778 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2099743 CAATGTGTAA
2099753 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
2099779 AATATTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:2100086 original size:13 final size:13
Alignment explanation
Indices: 2100070--2100094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2100060 TGACAAGTGA
2100070 TTAATTATTTTTC
1 TTAATTATTTTTC
2100083 TTAATTATTTTT
1 TTAATTATTTTT
2100095 TGCAAATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTAATTATTTTTC
Found at i:2101509 original size:32 final size:33
Alignment explanation
Indices: 2101452--2101517 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
2101442 CTTATTTTAT
* *
2101452 AATAAATTCATAAATATTTTTAAATTTATATAA
1 AATAAATTCATAAATATATTAAAATTTATATAA
*
2101485 AATAAATT-ATTAATATATTAAAATTTATATAA
1 AATAAATTCATAAATATATTAAAATTTATATAA
2101517 A
1 A
2101518 GATATAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (33 bp):
AATAAATTCATAAATATATTAAAATTTATATAA
Found at i:2109058 original size:10 final size:10
Alignment explanation
Indices: 2109054--2109096 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
2109044 CAAATTAATT
2109054 TAAATTTAAA
1 TAAATTTAAA
2109064 TAAATTTAAA
1 TAAATTTAAA
2109074 TTTCAAA-TTAAA
1 --T-AAATTTAAA
2109086 TAAATTTAAA
1 TAAATTTAAA
2109096 T
1 T
2109097 TTTTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 3 0.10
10 17 0.59
12 6 0.21
13 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAATTTAAA
Done.